Novel SNPs in the 3′UTR Region of GHRb Gene Associated with Growth Traits in Striped Catfish (Pangasianodon hypophthalmus), a Valuable Aquaculture Species

Abstract

The striped catfish, Pangasianodon hypophthalmus is an important freshwater aquaculture species in Southeast Asian countries due to its rapid growth. The growth hormone receptor (GHR) is a significant regulatory factor for the growth axis and has great potential applications in animal genetic breeding. This study aims to characterize the GHRb cDNA of the striped catfish and analyze the distribution of its mRNA. Screening of single nucleotide polymorphisms’ (SNPs) loci and diplotypes was performed to provide basic information for the assisted selection of molecular markers in genetic breeding. The results showed that the GHRb cDNA of striped catfish had 2791 bp, which encoded for 569 amino acids. In a phylogenyic study, the ghrb of the striped catfish was clustered with those of other catfish and they were highly homologous. Quantitative real-time PCR (qRT-PCR) experiments showed that GHRb mRNA was expressed in ten different organs of the striped catfish, with the highest expression level in the liver. Five SNP and a haplotype block were identified in the 3′UTR of the GHRb gene using the direct sequencing of 307 individuals. Three haplotypes were found and four diplotypes were constructed. The association analysis revealed that these polymorphisms were significantly associated with growth traits in the striped catfish (p < 0.05). These polymorphisms will provide a valuable reference for future molecular genetic marker-assisted breeding of striped catfish.

CANDIDATE GENES PROMISING FOR MARKER-ASSISTED SELECTION IN AQUACULTURE (review)

“…Генетический полиморфизм GHR может оказывать действие на нормальную функцию GH, тем самым влияя на признаки роста. Следовательно, базовая мутация в гене рецептора гормона роста способна воздействовать на уровень его экспрессии (141,160). В таблице 4 представлены ассоциации полиморфизмов гена GHR с показателями роста и развития рыб.…”

Non-synonymous polymorphism in IGFBP-3 gene associated with growth traits in striped catfish (Pangasianodon hypophthalmus, Sauvage, 1878)

“…Recently, maker assisted selection (MAS) breeding program for striped catfish has been paid attention. The associations between genetic variations in candidate genes and the related economically important traits have been investigated to develop molecular markers for MAS (Le et al, 2021;Tran et al, 2021;Jiang et al, 2022). Based on available genome sequence of P. hypophthalmus (Kim et al, 2018), this study aimed to discover SNPs in IGFBP-3 gene and characterize the association between these SNPs and the growth traits of striped catfish, suggesting potential MAS for pangasius growth selection.…”

Significant association between a non-synonymous snp in IGFBP5 gene and the growth of striped catfish (Pangasianodon hypophthalmus, Sauvage, 1878)

“…To enhance the pangasius production efficiency, developing selection program for fast growth of this fish is one of the important approaches, which has been conducted based on phenotype for a long time in Vietnam (Nguyen et al, 2012), (Vu et al, 2019), and in Indonesia (Irwan et al, 2019). However, genotype-based selection for growth traits, which towards maker assisted selection (MAS), was carried on recently by studying the association between the growth of striped catfish and the genetic variations such as microsatellites (Marnis, 2018) and SNPs in candidate genes (Tran et al, 2021), (Jiang et al, 2022). Based on available genome sequence of P. hypophthalmus (Kim et al, 2018), in this study, we aimed to screen and characterize SNPs in IGFBP5 gene associated with growth traits of striped catfish, to look for the potential candidate SNP marker for the MAS in pangasius breeding program.…”